| 1. Round | 20/07/2024 | MFK Vyškov | - | 1. SK Prostějov | 0:0 | ||||
| 2. Round | 27/07/2024 | Sigma Olomouc B | - | 1. SK Prostějov | 0:0 |  |
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| 5. Round | 09/08/2024 | 1. SK Prostějov | - | FC Sellier & Bellot Vlašim | 1:1 | |
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| 6. Round | 18/08/2024 | Baník Ostrava B | - | 1. SK Prostějov | 1:2 | |
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| 7. Round | 23/08/2024 | 1. SK Prostějov | - | Vysočina Jihlava | 2:1 |  |
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| 11. Round | 28/09/2024 | 1. SK Prostějov | - | FK Varnsdorf | 1:1 | ||||
| 9. Round | 02/10/2024 | 1. SK Prostějov | - | Zbrojovka Brno | 3:1 | ||||
| 13. Round | 21/10/2024 | 1. SK Prostějov | - | MFK Chrudim | 1:1 | ||||
| 14. Round | 26/10/2024 | SK Líšeň | - | 1. SK Prostějov | 2:0 | |
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| 15. Round | 01/11/2024 | 1. SK Prostějov | - | FK MAS Táborsko | 3:3 | |
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| 16. Round | 08/11/2024 | 1. SK Prostějov | - | Sigma Olomouc B | 2:0 | |
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| 10. Round | 16/11/2024 | SFC Opava | - | 1. SK Prostějov | 1:2 | ||||
| 17. Round | 03/03/2025 | FC Zlín | - | 1. SK Prostějov | 3:0 | ||||
| 18. Round | 07/03/2025 | 1. SK Prostějov | - | Viktoria Žižkov | 2:1 | |
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| 19. Round | 14/03/2025 | FC Sellier & Bellot Vlašim | - | 1. SK Prostějov | 3:1 | ||||
| 20. Round | 28/03/2025 | 1. SK Prostějov | - | Baník Ostrava B | 1:0 | ||||
| 21. Round | 04/04/2025 | Vysočina Jihlava | - | 1. SK Prostějov | 3:0 |
Czech Republic